Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e1/604a6926ab30f33787028fb774950e/aih-tih-sc-2a5468-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/013786bf60e48795a82bf865049234/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/dd59b60d7177eacee7dd614997af3a/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/dd59b60d7177eacee7dd614997af3a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/fb89939eba61d5b706cbb1ad481589/aih-tih-sc-2a5468-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-2a5468-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
Get exon regions from ref_annot.bed ...
Load BAM file ...  Total read pairs  used 1000000